Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 151 of 292
Found at i:44794435 original size:6 final size:6
Alignment explanation
Indices: 44794424--44794448 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44794414 AAAGCCCCAA
44794424 TATTTC TATTTC TATTTC TATTTC T
1 TATTTC TATTTC TATTTC TATTTC T
44794449 GGATAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTC
Found at i:44812864 original size:40 final size:43
Alignment explanation
Indices: 44812808--44812906 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 43
44812798 CAATGGTAAT
* *
44812808 TGGCACTAAGTGTGCGATTTAAAC-TAGCTTCGGCTA-TATGA
1 TGGCACTAAGTGTGCGATATAAACTTAGCTTCGGCTAGTAAGA
** *
44812849 -GGCACTAAGTGTGCGATATCGACTTAGCTTCGGTTAGTTAAGA
1 TGGCACTAAGTGTGCGATATAAACTTAGCTTCGGCTAG-TAAGA
44812892 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
44812907 AGAATCATTC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
40 20 0.41
41 11 0.22
43 4 0.08
44 14 0.29
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TGGCACTAAGTGTGCGATATAAACTTAGCTTCGGCTAGTAAGA
Found at i:44812905 original size:44 final size:41
Alignment explanation
Indices: 44812808--44812928 Score: 120
Period size: 44 Copynumber: 2.9 Consensus size: 41
44812798 CAATGGTAAT
* *
44812808 TGGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTATATGA
1 TGGCACTAAGTGTGCGATATAAACTAGCTTCGGCTATAAGA
** *
44812849 -GGCACTAAGTGTGCGATATCGACTTAGCTTCGGTTAGTTAAGA
1 TGGCACTAAGTGTGCGATATAAAC-TAGCTTCGGCTA--TAAGA
**
44812892 TGGCACTAAGTGTGCAGA-ATCATTCTAGCTTCGGCTA
1 TGGCACTAAGTGTGC-GATAT-AAACTAGCTTCGGCTA
44812929 ACTGTTGCAG
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
40 20 0.31
41 11 0.17
43 4 0.06
44 27 0.42
45 3 0.05
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGATATAAACTAGCTTCGGCTATAAGA
Found at i:44814745 original size:46 final size:46
Alignment explanation
Indices: 44814678--44814803 Score: 191
Period size: 46 Copynumber: 2.7 Consensus size: 46
44814668 AACCCACCCC
* *
44814678 TAAGTGAACTCGGACTCAACTCAATGAGCTC-GAGCTTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCACATCCA
* *
44814724 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCA
*
44814770 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
44814804 TGCTCAACCA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 73 0.97
47 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCA
Found at i:44814822 original size:46 final size:46
Alignment explanation
Indices: 44814680--44814822 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 46
44814670 CCCACCCCTA
* *
44814680 AGTGAACTCGGACTCAACTCAATGAGCTC-GA-GCTTTC-A-CATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC--TCAACCATCC-T
* * * *
44814725 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
44814772 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
44814818 AGTGA
1 AGTGA
44814823 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
46 63 0.80
47 1 0.01
48 1 0.01
49 1 0.01
50 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:44815265 original size:30 final size:30
Alignment explanation
Indices: 44815231--44815290 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
44815221 ATTTAATACG
44815231 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
44815261 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
44815291 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:44831091 original size:18 final size:18
Alignment explanation
Indices: 44831038--44831091 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
44831028 TGAATCTGTT
44831038 ATCTGAATTTGAATCTGAA
1 ATCTGAATTTGAATCT-AA
*
44831057 A-CTGAATTTGAAACTAA
1 ATCTGAATTTGAATCTAA
* *
44831074 ATCTGTATTTGTATCTAA
1 ATCTGAATTTGAATCTAA
44831092 CTGTGCATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 3 0.10
18 26 0.87
19 1 0.03
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (18 bp):
ATCTGAATTTGAATCTAA
Found at i:44835067 original size:13 final size:13
Alignment explanation
Indices: 44835049--44835073 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44835039 CGTTTCGTAT
44835049 TCATGCTTTTATA
1 TCATGCTTTTATA
44835062 TCATGCTTTTAT
1 TCATGCTTTTAT
44835074 TTCTTTCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TCATGCTTTTATA
Found at i:44835136 original size:13 final size:13
Alignment explanation
Indices: 44835108--44835146 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
44835098 AATTAGATTA
*
44835108 TGTTT-ATGTTTC
1 TGTTTCATGTTTT
*
44835120 TGTTTCGTGTTTT
1 TGTTTCATGTTTT
44835133 TGTTTCATGTTTT
1 TGTTTCATGTTTT
44835146 T
1 T
44835147 AATAATGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.05, C:0.08, G:0.18, T:0.69
Consensus pattern (13 bp):
TGTTTCATGTTTT
Found at i:44836136 original size:30 final size:30
Alignment explanation
Indices: 44836100--44836161 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
44836090 ATTCCCAAGC
*
44836100 TTAGGGGTAAAAGTGTAAATATGCAAAAGT
1 TTAGGGGCAAAAGTGTAAATATGCAAAAGT
* * * *
44836130 TTAGGGGCAAAATTGTAATTTTGCCAAAGT
1 TTAGGGGCAAAAGTGTAAATATGCAAAAGT
44836160 TT
1 TT
44836162 GAGTTAACGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.32
Consensus pattern (30 bp):
TTAGGGGCAAAAGTGTAAATATGCAAAAGT
Found at i:44836933 original size:68 final size:64
Alignment explanation
Indices: 44836823--44837074 Score: 217
Period size: 68 Copynumber: 3.8 Consensus size: 64
44836813 ATACTGATGG
* ** * * * *
44836823 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAG
44836886 ATTA
62 A-TA
*
44836890 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
44836955 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
44837020 TA
63 TA
* * * *
44837022 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAG
1 TA-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAG
44837075 TCGAACTATA
Statistics
Matches: 154, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 25 0.16
65 3 0.02
66 24 0.16
67 34 0.22
68 48 0.31
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:44841240 original size:68 final size:66
Alignment explanation
Indices: 44841168--44841317 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
44841158 CATCATGTGT
* * * *
44841168 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
44841231 TGTAG
62 TGTAG
** * *
44841236 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
44841301 AG
65 AG
44841303 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
44841318 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:44841273 original size:64 final size:64
Alignment explanation
Indices: 44841192--44841375 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
44841182 AGACATTATG
* * *
44841192 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
44841256 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
44841321 AA
63 AA
* * *
44841323 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
44841376 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:44847625 original size:40 final size:40
Alignment explanation
Indices: 44847566--44847832 Score: 291
Period size: 40 Copynumber: 6.7 Consensus size: 40
44847556 CAATTGAATG
* * * * *
44847566 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * * * *
44847606 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * **
44847646 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* ** * *
44847686 AAATCTAGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* * * **
44847726 CTATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
* *
44847766 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
*
44847806 CTATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
44847833 CGAGCATGTG
Statistics
Matches: 190, Mismatches: 37, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 190 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCATT
Found at i:44847853 original size:80 final size:80
Alignment explanation
Indices: 44847567--44847834 Score: 358
Period size: 80 Copynumber: 3.4 Consensus size: 80
44847557 AATTGAATGA
* * ** * ** * * * *
44847567 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
* * *
44847632 TTGTGCTAGTGACTAC
66 TTGTGCAAGTCA-TTC
**
44847648 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCTAGGCTAATACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
*
44847712 TTGTGCAAGTCGTTC
66 TTGTGCAAGTCATTC
*
44847727 TATCTGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
44847792 TTGTGCAAGTCATTC
66 TTGTGCAAGTCATTC
44847807 TATCCGGGCTAAGACCCGAAGGCATTCG
1 TATCCGGGCTAAGACCCGAAGGCATTCG
44847835 AGCATGTGGT
Statistics
Matches: 164, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
79 2 0.01
80 162 0.99
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
TTGTGCAAGTCATTC
Found at i:44849295 original size:33 final size:32
Alignment explanation
Indices: 44849244--44849307 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
44849234 ACGAAGTCAC
*
44849244 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAGGCCACCAGAA
* *
44849276 CAGATATATATATATGTGGCGAGGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAGGCCACCAGA
44849308 TTGTAGCGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAGGCCACCAGAA
Found at i:44854967 original size:39 final size:39
Alignment explanation
Indices: 44854847--44854978 Score: 223
Period size: 40 Copynumber: 3.4 Consensus size: 39
44854837 CGGATGTAAC
*
44854847 AACCAGCACGAATGCCTTAGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTT-GGGACTTAACCCGGTTATAAT
44854887 AACCCGCACGAATGCCTTGGGACTTAA-CCGGTTATAAT
1 AACCCGCACGAATGCCTTGGGACTTAACCCGGTTATAAT
44854925 AA-CCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTT-GGGACTTAACCCGGTTATAAT
44854964 AACCCGCACGAATGC
1 AACCCGCACGAATGC
44854979 TATGCACATA
Statistics
Matches: 88, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
37 15 0.17
38 22 0.25
39 22 0.25
40 29 0.33
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (39 bp):
AACCCGCACGAATGCCTTGGGACTTAACCCGGTTATAAT
Found at i:44867610 original size:40 final size:40
Alignment explanation
Indices: 44867528--44867734 Score: 182
Period size: 40 Copynumber: 5.2 Consensus size: 40
44867518 CGGGATTTAA
* * * * * *
44867528 CGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGCC
1 CGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
* ** * * *
44867568 CGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACC
1 CGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
* * * * *
44867608 CGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
*
44867648 CGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
*** * * *
44867688 CGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGCC
1 CGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGCC
44867728 CGGATAT
1 CGGATAT
44867735 CATTCCAATG
Statistics
Matches: 138, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 136 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
Found at i:44867647 original size:80 final size:80
Alignment explanation
Indices: 44867553--44867734 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
44867543 GCTCGATTGT
* * *** * * * **
44867553 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
44867618 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
44867633 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
44867698 TACTAGCATAATTGC
66 AACTAGCACAAATGC
44867713 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
44867735 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:44867895 original size:40 final size:40
Alignment explanation
Indices: 44867875--44868012 Score: 160
Period size: 36 Copynumber: 3.6 Consensus size: 40
44867865 TTCGCACGAT
*
44867875 TGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAAA
44867915 TGCCTTCGGGTCTTAACCCGGA--T--TAACTTGCACAAA
1 TGCCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAAA
* * ** * *
44867951 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAAA
* *
44867991 T-CCTTCGGGACTTAGCCCGGAT
1 TGCCTTCGGGTCTTAACCCGGAT
44868013 ATCATTCCAA
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
36 34 0.38
38 2 0.02
39 20 0.22
40 33 0.37
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAAA
Found at i:44868080 original size:280 final size:283
Alignment explanation
Indices: 44867563--44868131 Score: 1011
Period size: 280 Copynumber: 2.0 Consensus size: 283
44867553 CTTCGGGACC
44867563 TAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACA
1 TAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACA
* *
44867628 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGAT
66 AATGCCTTCGGGTCTTAACCCGGATAT-A-AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT
** *
44867693 ATAATTACTAGCATAATTGCCTTCGGGACTTAGCCCGGATATCATTCCAATGTTCATTTACACAT
129 ATAACAACTAGCAGAATTGCCTTCGGGACTTAGCCCGGATATCATTCCAATGTTCATTTACACAT
44867758 ATATCAATAATCAAGACACATCCATAATTCATTTTCGTTACTAAGACTCTAACACAAAATATTTA
194 ATATCAATAATCAAGACACATCCATAATTCATTTTCGTTACTAAGACTCTAACACAAAATATTTA
44867823 TCAAACCTTTACAATTTCGGCTCAA
259 TCAAACCTTTACAATTTCGGCTCAA
44867848 TAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACA
1 TAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACA
*
44867913 AATGCCTTCGGGTCTTAACCCGGAT-T-AACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
66 AATGCCTTCGGGTCTTAACCCGGATATAAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
*
44867976 AACAACTCGCACGAA-T-CCTTCGGGACTTAGCCCGGATATCATTCCAATGTTCATTTACACATA
131 AACAACTAGCA-GAATTGCCTTCGGGACTTAGCCCGGATATCATTCCAATGTTCATTTACACATA
*
44868039 TATCAATAATCAAGACACATCCATAATTCATTTTCGTTACTAAGGCTCTAACACAAAATATTTAT
195 TATCAATAATCAAGACACATCCATAATTCATTTTCGTTACTAAGACTCTAACACAAAATATTTAT
44868104 CAAACCTTTACAATTTCGGCTCAA
260 CAAACCTTTACAATTTCGGCTCAA
44868128 TAGC
1 TAGC
44868132 ACACACAGGA
Statistics
Matches: 275, Mismatches: 8, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
280 139 0.51
281 44 0.16
282 2 0.01
284 1 0.00
285 89 0.32
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (283 bp):
TAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACA
AATGCCTTCGGGTCTTAACCCGGATATAAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
AACAACTAGCAGAATTGCCTTCGGGACTTAGCCCGGATATCATTCCAATGTTCATTTACACATAT
ATCAATAATCAAGACACATCCATAATTCATTTTCGTTACTAAGACTCTAACACAAAATATTTATC
AAACCTTTACAATTTCGGCTCAA
Found at i:44875931 original size:40 final size:40
Alignment explanation
Indices: 44875853--44876011 Score: 149
Period size: 40 Copynumber: 4.0 Consensus size: 40
44875843 TTTAACCAGA
* * * * * *
44875853 TATAGCGACTCGCTCGATTGTCTTCGGGACCTAGCCCGGT
1 TATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGT
** * * *
44875893 TATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGAT
1 TATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGG-T
* * * * *
44875934 T-TGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGA
1 TATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGT
*
44875973 TATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGG
1 TATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGG
44876012 ATATCATTCC
Statistics
Matches: 97, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.97
41 2 0.02
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.28
Consensus pattern (40 bp):
TATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGT
Found at i:44876012 original size:40 final size:40
Alignment explanation
Indices: 44875902--44876015 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 40
44875892 TTATAGTGAT
* * * ***
44875902 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* *
44875942 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
44875982 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
44876016 CATTCCAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
Found at i:44881550 original size:42 final size:42
Alignment explanation
Indices: 44881438--44881592 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
44881428 TACCATACCA
* *
44881438 ATGCCATATCCCAGATATAGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCGTATCG
* ** *
44881480 ATGCCAATAGCCCAGCGATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
* *
44881523 ATGCCATATCCCAAATATGGTCTTACACGAAGTCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
*
44881565 ATACCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
44881593 ATAATCTTAG
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 64 0.66
43 33 0.34
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
Found at i:44887321 original size:43 final size:43
Alignment explanation
Indices: 44887035--44887298 Score: 420
Period size: 43 Copynumber: 6.1 Consensus size: 43
44887025 AAAAATTTGT
*
44887035 GGCGTTTATTGGGAAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTT-GTGGG-AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
*
44887080 GGCGTTTGTGGGAAAAGCGCCGCTAAAGCTCAAGGCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
*
44887123 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTAGGCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
* *
44887166 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTAGGTTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
* *
44887209 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTAGGTTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
* * *
44887252 GGCATTTGTGGTAAAAGTGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
44887295 GGCG
1 GGCG
44887299 CTTTTTTTAC
Statistics
Matches: 208, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
43 197 0.95
44 4 0.02
45 7 0.03
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
Found at i:44887723 original size:21 final size:21
Alignment explanation
Indices: 44887699--44887744 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
44887689 GCTCGTGCCT
*
44887699 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
44887720 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
44887741 CTGC
1 CTGC
44887745 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:44890077 original size:183 final size:183
Alignment explanation
Indices: 44889767--44890135 Score: 675
Period size: 183 Copynumber: 2.0 Consensus size: 183
44889757 CCTAGAACAG
44889767 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
*
44889832 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGTTTCAGTTGAACCAATAGCTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
* *
44889897 AGTAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
*
44889950 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
*
44890015 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
* *
44890080 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
44890133 ATG
1 ATG
44890136 GAACTATATC
Statistics
Matches: 179, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 179 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
Found at i:44890225 original size:14 final size:13
Alignment explanation
Indices: 44890206--44890235 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
44890196 CAATATAATT
44890206 TTACTTCATATATA
1 TTACTTCATATA-A
44890220 TTACTTCATATAA
1 TTACTTCATATAA
44890233 TTA
1 TTA
44890236 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:44893082 original size:27 final size:27
Alignment explanation
Indices: 44893052--44893116 Score: 107
Period size: 26 Copynumber: 2.5 Consensus size: 27
44893042 ACTAGGGTAA
*
44893052 AAATTTTTGGGGAGAAGAAGTTGGGGG
1 AAATTTTGGGGGAGAAGAAGTTGGGGG
44893079 AAA-TTTGGGGGAGAAGAAGTTGGGGG
1 AAATTTTGGGGGAGAAGAAGTTGGGGG
44893105 AAA-TTTGGGGGA
1 AAATTTTGGGGGA
44893117 AATCGGGGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 34 0.92
27 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (27 bp):
AAATTTTGGGGGAGAAGAAGTTGGGGG
Found at i:44893088 original size:11 final size:11
Alignment explanation
Indices: 44893072--44893119 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 11
44893062 GGAGAAGAAG
44893072 TTGGGGGAAAT
1 TTGGGGGAAAT
*
44893083 TTGGGGGAGAAGAAG
1 TT-GGGG-G-A-AAT
44893098 TTGGGGGAAAT
1 TTGGGGGAAAT
44893109 TTGGGGGAAAT
1 TTGGGGGAAAT
44893120 CGGGGAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 15 0.48
12 5 0.16
13 2 0.06
14 5 0.16
15 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (11 bp):
TTGGGGGAAAT
Found at i:44893092 original size:26 final size:26
Alignment explanation
Indices: 44893060--44893116 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
44893050 AAAAATTTTT
44893060 GGGGAGAAGAAGTTGGGGGAAATTTG
1 GGGGAGAAGAAGTTGGGGGAAATTTG
44893086 GGGGAGAAGAAGTTGGGGGAAATTTG
1 GGGGAGAAGAAGTTGGGGGAAATTTG
44893112 GGGGA
1 GGGGA
44893117 AATCGGGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.53, T:0.18
Consensus pattern (26 bp):
GGGGAGAAGAAGTTGGGGGAAATTTG
Found at i:44893103 original size:15 final size:15
Alignment explanation
Indices: 44893060--44893105 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
44893050 AAAAATTTTT
44893060 GGGGAGAAGAAGTT-
1 GGGGAGAAGAAGTTG
*
44893074 GGGG-G-A-AATTTG
1 GGGGAGAAGAAGTTG
44893086 GGGGAGAAGAAGTTG
1 GGGGAGAAGAAGTTG
44893101 GGGGA
1 GGGGA
44893106 AATTTGGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 2 0.08
14 5 0.19
15 10 0.38
ACGTcount: A:0.30, C:0.00, G:0.54, T:0.15
Consensus pattern (15 bp):
GGGGAGAAGAAGTTG
Found at i:44893429 original size:28 final size:28
Alignment explanation
Indices: 44893397--44893454 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
44893387 AATCAAAACT
*
44893397 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
44893425 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
44893453 CT
1 CT
44893455 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:44893455 original size:21 final size:21
Alignment explanation
Indices: 44893431--44893474 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
44893421 ATCCCTATAA
* *
44893431 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
44893452 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
44893473 CC
1 CC
44893475 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:44893504 original size:49 final size:50
Alignment explanation
Indices: 44893402--44893506 Score: 117
Period size: 49 Copynumber: 2.1 Consensus size: 50
44893392 AAACTCTATA
* * * * *
44893402 CCTTAAACCATTAAACTATATCCCTATAACCTTAATCCCTAAAGTATATC
1 CCTTAAACCACTAAACTATATCCCTATAACCATAAACCCTAAAATATAAC
*
44893452 CCTTAAACC-CTAAACTATATCCC-CTAACCATAAACCAC-AAAATAATAAC
1 CCTTAAACCACTAAACTATATCCCTATAACCATAAACC-CTAAAAT-ATAAC
44893501 CCTTAA
1 CCTTAA
44893507 GCCTTAACCA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
48 14 0.30
49 24 0.51
50 9 0.19
ACGTcount: A:0.42, C:0.30, G:0.01, T:0.27
Consensus pattern (50 bp):
CCTTAAACCACTAAACTATATCCCTATAACCATAAACCCTAAAATATAAC
Found at i:44893708 original size:7 final size:7
Alignment explanation
Indices: 44893696--44893722 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
44893686 CCCTAAGTAT
44893696 TAACCCC
1 TAACCCC
44893703 TAACCCC
1 TAACCCC
44893710 TAACCCC
1 TAACCCC
44893717 TAACCC
1 TAACCC
44893723 TTAAATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:44893742 original size:21 final size:22
Alignment explanation
Indices: 44893711--44893754 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
44893701 CCTAACCCCT
*
44893711 AACCCCTAACCCTTAAATCATA
1 AACCCCTAACCCTTAAACCATA
44893733 AACCCC-AACCCTTAAACCATA
1 AACCCCTAACCCTTAAACCATA
44893754 A
1 A
44893755 TACATAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAACCCTTAAACCATA
Found at i:44893885 original size:41 final size:41
Alignment explanation
Indices: 44893828--44894088 Score: 391
Period size: 41 Copynumber: 6.4 Consensus size: 41
44893818 AACCCTAAAC
44893828 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
44893869 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
*
44893910 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* * *
44893951 TTTCTAGCAGCGCTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* *** *
44893992 TTCTTAGCGGCGCTTTTGGTAAAA-CGCCGCTATTGCTCTTA
1 TTTTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCTTA
* * *
44894033 TTTTTAGCAGCGTTTTACCAAAAGCGCCGCTATTGCTC-TG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
44894073 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
44894089 TGGTAAAACG
Statistics
Matches: 198, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
40 24 0.12
41 167 0.84
42 7 0.04
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
Found at i:44894131 original size:40 final size:39
Alignment explanation
Indices: 44893970--44894119 Score: 122
Period size: 41 Copynumber: 3.7 Consensus size: 39
44893960 GCGCTTTACC
* * *
44893970 AAAAGCGCCGCTAATGCTCTTATTCTTAGCGGCGC-TTTTGGT
1 AAAA-CGCCGCTATTGCTC-TATTTTTAGC-AC-CTTTTTGGT
* * ***
44894012 AAAACGCCGCTATTGCTCTTATTTTTAGCAGCGTTTTACC
1 AAAACGCCGCTATTGCTC-TATTTTTAGCACCTTTTTGGT
* * *
44894052 AAAAGCGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTTGGT
1 AAAA-CGCCGCTATTGCTCTATTTTTAGC-ACCTTTTTGGT
44894093 AAAACGCCGCTATTGCTCTATGTTTTA
1 AAAACGCCGCTATTGCTCTAT-TTTTA
44894120 CAATTTTTTT
Statistics
Matches: 88, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
39 1 0.01
40 33 0.38
41 50 0.57
42 4 0.05
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (39 bp):
AAAACGCCGCTATTGCTCTATTTTTAGCACCTTTTTGGT
Found at i:44897713 original size:31 final size:31
Alignment explanation
Indices: 44897675--44897736 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
44897665 GGGTTGTAAA
44897675 CTTTAAGCCATGCGAAAATGGCCTATGTGGT
1 CTTTAAGCCATGCGAAAATGGCCTATGTGGT
*
44897706 CTTTAAGCCATGTGAAAATGGCCTATGTGGT
1 CTTTAAGCCATGCGAAAATGGCCTATGTGGT
44897737 TCGATCGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (31 bp):
CTTTAAGCCATGCGAAAATGGCCTATGTGGT
Found at i:44904629 original size:29 final size:29
Alignment explanation
Indices: 44904596--44904727 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
44904586 GTGACGAGAT
*
44904596 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
44904625 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
44904654 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
** * **
44904683 TAACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
44904712 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
44904728 AGCTCGAAGG
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:44909413 original size:31 final size:31
Alignment explanation
Indices: 44909375--44909515 Score: 237
Period size: 31 Copynumber: 4.5 Consensus size: 31
44909365 TCTAACTGTT
44909375 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
44909406 ACTGGGCCGAAGCCTTTTCATAAATCGTATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
44909437 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
44909468 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
44909499 ACTGGGCCGAAGACTTT
1 ACTGGGCCGAAGCCTTT
44909516 ACTGTAAACG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:44909584 original size:42 final size:42
Alignment explanation
Indices: 44909537--44909630 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 42
44909527 TATGGCCCAT
* **
44909537 AAGCCCATTTCAATATCACATGTAATGTCAATG-GATGTATGC
1 AAGCCCATTTCAATATCACATGAAATACCAATGAG-TGTATGC
44909579 AAGCCCATTTCAATATCACATGAAATACCAATGAGTGTATGC
1 AAGCCCATTTCAATATCACATGAAATACCAATGAGTGTATGC
44909621 AAGCCCATTT
1 AAGCCCATTT
44909631 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (42 bp):
AAGCCCATTTCAATATCACATGAAATACCAATGAGTGTATGC
Found at i:44909804 original size:25 final size:26
Alignment explanation
Indices: 44909776--44909923 Score: 230
Period size: 25 Copynumber: 5.8 Consensus size: 26
44909766 CTCTTTTAAT
44909776 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
44909801 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
44909826 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
44909851 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
44909877 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
44909903 AATTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
44909924 GCACTTCCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 58 0.50
26 57 0.50
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:44909913 original size:52 final size:51
Alignment explanation
Indices: 44909776--44909923 Score: 253
Period size: 52 Copynumber: 2.9 Consensus size: 51
44909766 CTCTTTTAAT
**
44909776 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
44909826 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
*
44909877 AACTGGGGCATAAGCCCTTTTCAATAAATTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
44909924 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 33 0.35
51 25 0.27
52 35 0.38
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
Found at i:44910049 original size:20 final size:20
Alignment explanation
Indices: 44909973--44910043 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
44909963 TTATGAATAC
*
44909973 ATCATATGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
44909993 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
44910013 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
44910033 ATCATGTGCAT
1 ATCATGTGCAT
44910044 ATTATATCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:44910056 original size:20 final size:19
Alignment explanation
Indices: 44909973--44910059 Score: 113
Period size: 20 Copynumber: 4.4 Consensus size: 19
44909963 TTATGAATAC
*
44909973 ATCATATGCATTTCATACAT
1 ATCATGTGCATTT-ATACAT
44909993 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTT-ATACAT
44910013 ATCATGTGCATTTTATACAT
1 ATCATGTGCA-TTTATACAT
44910033 ATCATGTGCATATTATATCA-
1 ATCATGTGCAT-TTATA-CAT
44910053 ATCATGT
1 ATCATGT
44910060 ATATAATATC
Statistics
Matches: 63, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
19 1 0.02
20 57 0.90
21 5 0.08
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.41
Consensus pattern (19 bp):
ATCATGTGCATTTATACAT
Found at i:44910832 original size:26 final size:26
Alignment explanation
Indices: 44910767--44910867 Score: 78
Period size: 27 Copynumber: 3.7 Consensus size: 26
44910757 GGCGTATTCA
44910767 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACC-TACAAGGGTATTACGG
* *
44910794 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTA-CCTACAAGGG-TATTACGG
* * * ***
44910821 TCTTTTTACCTATTAGGGGTATTTTAG
1 TCATTTTACCTA-CAAGGGTATTACGG
44910848 TCATTTTATCCTACAAGGGT
1 TCATTTTA-CCTACAAGGGT
44910868 GTTTTGGTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
26 5 0.09
27 46 0.79
28 7 0.12
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (26 bp):
TCATTTTACCTACAAGGGTATTACGG
Found at i:44910892 original size:27 final size:27
Alignment explanation
Indices: 44910862--44911013 Score: 155
Period size: 27 Copynumber: 5.7 Consensus size: 27
44910852 TTTATCCTAC
* * *
44910862 AAGGGTGTTTTGGTAAATCTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAATT
* **
44910889 AAGGGTATTTTTGTAATTTTGTAAATT
1 AAGGGTATTTTGGTAATTTTACAAATT
*
44910916 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAATT
* * * *
44910943 GAGGGTATTTTTGTAATTTCACAAA-C
1 AAGGGTATTTTGGTAATTTTACAAATT
* *
44910969 CAGTGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAATT
*
44910997 -AGGGTGTTTTGGTAATT
1 AAGGGTATTTTGGTAATT
44911014 CTACCCTATA
Statistics
Matches: 103, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
26 16 0.16
27 87 0.84
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAATT
Found at i:44910977 original size:54 final size:53
Alignment explanation
Indices: 44910864--44911013 Score: 174
Period size: 54 Copynumber: 2.8 Consensus size: 53
44910854 TATCCTACAA
* * * *** **
44910864 GGGTGTTTTGGTAAATCTACAAATTAAGGGTATTTTTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAATT-AGGGTATTTTTGTAATTTCACAAACCAG
44910918 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTTGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATT-AGGGTATTTTTGTAATTTCACAAACCAG
* * * *
44910972 TGGTATTTTGGTAATTTTACAAACTAGGGTGTTTTGGTAATT
1 GGGTATTTTGGTAATTTTACAAATTAGGGTATTTTTGTAATT
44911014 CTACCCTATA
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 15 0.18
54 68 0.82
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAATTAGGGTATTTTTGTAATTTCACAAACCAG
Found at i:44911039 original size:80 final size:81
Alignment explanation
Indices: 44910892--44911043 Score: 182
Period size: 80 Copynumber: 1.9 Consensus size: 81
44910882 ACAAATTAAG
* ** * * * **
44910892 GGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTTGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTCAGT
44910957 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
* **
44910973 GGTATTTTGGTAATTTTACAAACTA-GGGTGTTTTGGTAATTCTACCCTATAG-GGGTATTTCAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAAATAGAGGGTATTTCAG
44911036 TAATTTCA
65 TAATTTCA
44911044 TAATCGAGGG
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
80 34 0.58
81 25 0.42
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:44911064 original size:26 final size:27
Alignment explanation
Indices: 44911033--44911135 Score: 122
Period size: 26 Copynumber: 3.9 Consensus size: 27
44911023 AGGGGTATTT
44911033 CAGTAATTTCAT-AATCGAGGGTAAAA
1 CAGTAATTTCATAAATCGAGGGTAAAA
** **
44911059 TGGTAATTTTGTAAATC-AGGGTAAAA
1 CAGTAATTTCATAAATCGAGGGTAAAA
**
44911085 CAGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTTCATAAATCGAGGGTAAAA
44911112 CAGTAA-TTCTATAAATCGAGGGTA
1 CAGTAATTTC-ATAAATCGAGGGTA
44911136 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 34 0.52
27 32 0.48
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (27 bp):
CAGTAATTTCATAAATCGAGGGTAAAA
Found at i:44911075 original size:27 final size:27
Alignment explanation
Indices: 44911034--44911299 Score: 164
Period size: 27 Copynumber: 9.9 Consensus size: 27
44911024 GGGGTATTTC
*
44911034 AGTAATTTCAT-AATCGAGGGTAAAAT
1 AGTAATTTTATAAATCGAGGGTAAAAT
* * *
44911060 GGTAATTTTGTAAATC-AGGGTAAAAC
1 AGTAATTTTATAAATCGAGGGTAAAAT
* *
44911086 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTATAAATCGAGGGTAAAAT
* ***
44911113 AGTAATTCTATAAATCGAGGGTACTTT
1 AGTAATTTTATAAATCGAGGGTAAAAT
* **
44911140 GGTAATTTT-TACAAGTCGAGGGT-ATTT
1 AGTAATTTTATA-AA-TCGAGGGTAAAAT
* * ***
44911167 CAGTAATTTTACAAATCAAGGGGTATTTT
1 -AGTAATTTTATAAATCGA-GGGTAAAAT
* * ***
44911196 AGTAATTTTACAAA-CTAGGGGTATTTT
1 AGTAATTTTATAAATCGA-GGGTAAAAT
* * *
44911223 AGTAATTTTGTAAATTGAGGGTAAAAC
1 AGTAATTTTATAAATCGAGGGTAAAAT
* * *
44911250 GGTAATTCTATAAATTGAGGGTAAAAT
1 AGTAATTTTATAAATCGAGGGTAAAAT
* * *
44911277 GGTAATTCTATAAATCTAGGGTA
1 AGTAATTTTATAAATCGAGGGTA
44911300 GAACGATAAT
Statistics
Matches: 198, Mismatches: 33, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
26 34 0.17
27 123 0.62
28 37 0.19
29 4 0.02
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (27 bp):
AGTAATTTTATAAATCGAGGGTAAAAT
Found at i:44911162 original size:28 final size:26
Alignment explanation
Indices: 44910918--44911245 Score: 130
Period size: 27 Copynumber: 12.2 Consensus size: 26
44910908 TGTAAATTAG
* *
44910918 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* * *
44910945 GGGTATTTTTGTAATTTCACAAA-CCA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* *
44910971 GTGGTATTTTGGTAATTTTACAAA-CTA
1 G-GGTA-TTTAGTAATTTTACAAATCGA
* * * ** *
44910998 GGGTGTTTTGGTAATTCTACCCTATAG-
1 GGGT-ATTTAGTAATTTTA-CAAATCGA
44911025 GGGTATTTCAGTAA-TTT-CATAATCGA
1 GGGTATTT-AGTAATTTTACA-AATCGA
** * **
44911051 GGGTAAAATGGTAATTTTGTAAATC-A
1 GGGT-ATTTAGTAATTTTACAAATCGA
*** **
44911077 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGT-ATTTAGTAATTTTACAAATCGA
*** * *
44911104 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGT-ATTTAGTAATTTTACAAATCGA
* *
44911131 GGGTACTTTGGTAATTTTTACAAGTCGA
1 GGGTA-TTTAGTAA-TTTTACAAATCGA
*
44911159 GGGTATTTCAGTAATTTTACAAATCAA
1 GGGTATTT-AGTAATTTTACAAATCGA
*
44911186 GGGGTATTTTAGTAATTTTACAAA-CTA
1 -GGGTA-TTTAGTAATTTTACAAATCGA
** *
44911213 GGGGTATTTTAGTAATTTTGTAAATTGA
1 -GGGTA-TTTAGTAATTTTACAAATCGA
44911241 GGGTA
1 GGGTA
44911246 AAACGGTAAT
Statistics
Matches: 242, Mismatches: 42, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.00
25 3 0.01
26 55 0.23
27 140 0.58
28 40 0.17
29 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTACAAATCGA
Found at i:44911171 original size:55 final size:54
Alignment explanation
Indices: 44911086--44911245 Score: 153
Period size: 55 Copynumber: 2.9 Consensus size: 54
44911076 AGGGTAAAAC
*** *
44911086 AGTAATTTTGTA-AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTT
1 AGTAATTTT-TACAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTACTTT
* * * *
44911140 GGTAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCAAGGGGTATTTT
1 AGTAATTTTTACAA-TCGAGGGTATTTCAGTAATTTTATAAATCGA-GGGTACTTT
* * * * *
44911196 AGTAA-TTTTACAAACTAGGGGTATTTTAGTAATTTTGTAAATTGAGGGTA
1 AGTAATTTTTACAATCGA-GGGTATTTCAGTAATTTTATAAATCGAGGGTA
44911246 AAACGGTAAT
Statistics
Matches: 86, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
53 2 0.02
54 17 0.20
55 55 0.64
56 12 0.14
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (54 bp):
AGTAATTTTTACAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTACTTT
Found at i:44911272 original size:54 final size:53
Alignment explanation
Indices: 44911213--44911342 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 53
44911203 TTACAAACTA
* * * *
44911213 GGGGTATTTTAGTAATTTTGTAAAT-TGAGGGTAAAACGGTAATTCTATAAATT
1 GGGGTAATTTGGTAATTTTGTAAATCT-AGGGTAAAACGATAATTCTATAAATC
** * * * *
44911266 GAGGGTAAAATGGTAATTCTATAAATCTAGGGTAGAACGATAATTCTGTAAATC
1 G-GGGTAATTTGGTAATTTTGTAAATCTAGGGTAAAACGATAATTCTATAAATC
* *
44911320 GGGGTACTTTGGTAATTTGGTAA
1 GGGGTAATTTGGTAATTTTGTAA
44911343 CTAAAGTATT
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
53 17 0.29
54 41 0.69
55 1 0.02
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (53 bp):
GGGGTAATTTGGTAATTTTGTAAATCTAGGGTAAAACGATAATTCTATAAATC
Found at i:44911309 original size:27 final size:28
Alignment explanation
Indices: 44911224--44911319 Score: 117
Period size: 27 Copynumber: 3.5 Consensus size: 28
44911214 GGGTATTTTA
* *
44911224 GTAATTTTGTAAAT-TGAGGGTAAAACG
1 GTAATTCTATAAATCTGAGGGTAAAACG
*
44911251 GTAATTCTATAAAT-TGAGGGTAAAATG
1 GTAATTCTATAAATCTGAGGGTAAAACG
*
44911278 GTAATTCTATAAATCT-AGGGTAGAACG
1 GTAATTCTATAAATCTGAGGGTAAAACG
* *
44911305 ATAATTCTGTAAATC
1 GTAATTCTATAAATC
44911320 GGGGTACTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 60 0.98
28 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (28 bp):
GTAATTCTATAAATCTGAGGGTAAAACG
Found at i:44913263 original size:31 final size:31
Alignment explanation
Indices: 44913225--44913334 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
44913215 GTTAACTGTT
44913225 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
44913256 ACTGGGCCGAAGCCTTTTCATAAATCGTATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
44913287 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
44913318 ACTGGGCCGAAGACTTT
1 ACTGGGCCGAAGCCTTT
44913335 ACTGTAAACG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:44913268 original size:59 final size:61
Alignment explanation
Indices: 44913192--44913334 Score: 186
Period size: 62 Copynumber: 2.4 Consensus size: 61
44913182 TTAGTCTTGA
* * * *
44913192 CATAT-ACTGGGCTGAAGCCTTTCGTTAA-CTGT-T-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCATAAATC-GTATCACTGGGCCAAAGCCTTTTCATAAAT
44913250 CATATCACTGGGCCGAAGCCTTTTCATAAATCGTATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCC-TTTCATAAATCGTATCACTGGGCCAAAGCCTTTTCATAAAT
* *
44913312 CATTTCACTGGGCCGAAGACTTT
1 CATATCACTGGGCCGAAGCCTTT
44913335 ACTGTAAACG
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
58 5 0.07
59 13 0.18
60 9 0.12
61 5 0.07
62 42 0.57
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (61 bp):
CATATCACTGGGCCGAAGCCTTTCATAAATCGTATCACTGGGCCAAAGCCTTTTCATAAAT
Found at i:44913403 original size:42 final size:42
Alignment explanation
Indices: 44913356--44913448 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
44913346 TATGGCCCAT
* ** *
44913356 AGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCA
1 AGCCCATTTCAATATCACATGAAATACCAATGAATGTATGCA
44913398 AGCCCATTTCAATATCACATGAAATACCAATGAATGTATGCA
1 AGCCCATTTCAATATCACATGAAATACCAATGAATGTATGCA
44913440 AGCCCATTT
1 AGCCCATTT
44913449 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
AGCCCATTTCAATATCACATGAAATACCAATGAATGTATGCA
Found at i:44913622 original size:25 final size:26
Alignment explanation
Indices: 44913594--44913741 Score: 230
Period size: 25 Copynumber: 5.8 Consensus size: 26
44913584 CTCTTTTAAT
44913594 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
44913619 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
44913644 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
44913669 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
44913695 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
44913721 AATTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
44913742 GCACTTCCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 58 0.50
26 57 0.50
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:44913731 original size:52 final size:51
Alignment explanation
Indices: 44913594--44913741 Score: 253
Period size: 52 Copynumber: 2.9 Consensus size: 51
44913584 CTCTTTTAAT
**
44913594 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
44913644 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
*
44913695 AACTGGGGCATAAGCCCTTTTCAATAAATTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
44913742 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 33 0.35
51 25 0.27
52 35 0.38
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
Found at i:44913867 original size:20 final size:20
Alignment explanation
Indices: 44913791--44913861 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
44913781 TTATGAATAC
*
44913791 ATCATATGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
44913811 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
44913831 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
44913851 ATCATGTGCAT
1 ATCATGTGCAT
44913862 ATTATATCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:44913874 original size:20 final size:19
Alignment explanation
Indices: 44913791--44913877 Score: 113
Period size: 20 Copynumber: 4.4 Consensus size: 19
44913781 TTATGAATAC
*
44913791 ATCATATGCATTTCATACAT
1 ATCATGTGCATTT-ATACAT
44913811 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTT-ATACAT
44913831 ATCATGTGCATTTTATACAT
1 ATCATGTGCA-TTTATACAT
44913851 ATCATGTGCATATTATATCA-
1 ATCATGTGCAT-TTATA-CAT
44913871 ATCATGT
1 ATCATGT
44913878 ATATAATATC
Statistics
Matches: 63, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
19 1 0.02
20 57 0.90
21 5 0.08
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.41
Consensus pattern (19 bp):
ATCATGTGCATTTATACAT
Found at i:44914647 original size:26 final size:26
Alignment explanation
Indices: 44914582--44914682 Score: 78
Period size: 27 Copynumber: 3.7 Consensus size: 26
44914572 GGCGTATTCA
44914582 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACC-TACAAGGGTATTACGG
* *
44914609 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTA-CCTACAAGGG-TATTACGG
* * * ***
44914636 TCTTTTTACCTATTAGGGGTATTTTAG
1 TCATTTTACCTA-CAAGGGTATTACGG
44914663 TCATTTTATCCTACAAGGGT
1 TCATTTTA-CCTACAAGGGT
44914683 GTTTTGGTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
26 5 0.09
27 46 0.79
28 7 0.12
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (26 bp):
TCATTTTACCTACAAGGGTATTACGG
Found at i:44914707 original size:27 final size:27
Alignment explanation
Indices: 44914677--44914828 Score: 155
Period size: 27 Copynumber: 5.7 Consensus size: 27
44914667 TTTATCCTAC
* * *
44914677 AAGGGTGTTTTGGTAAATCTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAATT
* **
44914704 AAGGGTATTTTTGTAATTTTGTAAATT
1 AAGGGTATTTTGGTAATTTTACAAATT
*
44914731 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAATT
* * * *
44914758 GAGGGTATTTTTGTAATTTCACAAA-C
1 AAGGGTATTTTGGTAATTTTACAAATT
* *
44914784 CAGTGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAATT
*
44914812 -AGGGTGTTTTGGTAATT
1 AAGGGTATTTTGGTAATT
44914829 CTACCCTATA
Statistics
Matches: 103, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
26 16 0.16
27 87 0.84
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAATT
Found at i:44914792 original size:54 final size:53
Alignment explanation
Indices: 44914679--44914828 Score: 174
Period size: 54 Copynumber: 2.8 Consensus size: 53
44914669 TATCCTACAA
* * * *** **
44914679 GGGTGTTTTGGTAAATCTACAAATTAAGGGTATTTTTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAATT-AGGGTATTTTTGTAATTTCACAAACCAG
44914733 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTTGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATT-AGGGTATTTTTGTAATTTCACAAACCAG
* * * *
44914787 TGGTATTTTGGTAATTTTACAAACTAGGGTGTTTTGGTAATT
1 GGGTATTTTGGTAATTTTACAAATTAGGGTATTTTTGTAATT
44914829 CTACCCTATA
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 15 0.18
54 68 0.82
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAATTAGGGTATTTTTGTAATTTCACAAACCAG
Found at i:44914854 original size:80 final size:81
Alignment explanation
Indices: 44914707--44914858 Score: 182
Period size: 80 Copynumber: 1.9 Consensus size: 81
44914697 ACAAATTAAG
* ** * * * **
44914707 GGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTTGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTCAGT
44914772 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
* **
44914788 GGTATTTTGGTAATTTTACAAACTA-GGGTGTTTTGGTAATTCTACCCTATAG-GGGTATTTCAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTA-CAAATAGAGGGTATTTCAG
44914851 TAATTTCA
65 TAATTTCA
44914859 TAATCGAGGG
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
80 34 0.58
81 25 0.42
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:44914890 original size:27 final size:27
Alignment explanation
Indices: 44914850--44915142 Score: 146
Period size: 27 Copynumber: 10.8 Consensus size: 27
44914840 GGGTATTTCA
*
44914850 GTAATTTCAT-AATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* **
44914876 GTAATTTTGTAAATC-AGGGGTAAAACA
1 GTAATTTTATAAATCGA-GGGTAAAATG
* **
44914903 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTTTATAAATCGAGGGTAAAATG
* ***
44914930 GTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAAAATG
** *
44914957 GTAATTTT-TACAAGTCGAGGGT-ATTTCA
1 GTAATTTTATA-AA-TCGAGGGTAAAAT-G
* * *** *
44914985 GTAATTTTACAAATCAAGGGGTATTTTA
1 GTAATTTTATAAATCGA-GGGTAAAATG
* * *** *
44915013 GTAATTTTACAAA-CTAGGGGTATTTTA
1 GTAATTTTATAAATCGA-GGGTAAAATG
* * *
44915040 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
44915067 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* * * *
44915094 GTAATTCTATAAATCTAGGGTAGAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* * * *
44915121 ATAATTCTGTAAATCGGGGGTA
1 GTAATTTTATAAATCGAGGGTA
44915143 CTTTGGTAAT
Statistics
Matches: 219, Mismatches: 38, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
26 11 0.05
27 166 0.76
28 38 0.17
29 4 0.02
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAATG
Found at i:44914951 original size:54 final size:54
Alignment explanation
Indices: 44914848--44915142 Score: 161
Period size: 54 Copynumber: 5.4 Consensus size: 54
44914838 AGGGGTATTT
* * *
44914848 CAGTAATTTCAT-AATCGAGGGTAAAATGGTAATTTTGTAAATC-AGGGGTAAAA
1 CAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTATAAATCGA-GGGTAAAA
* * * ***
44914901 CAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTT
1 CAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAA
** ** * * ***
44914955 TGGTAATTTT-TACAAGTCGAGGGT-ATTTCAGTAATTTTACAAATCAAGGGGTATTT
1 CAGTAATTTTATA-AA-TCGAGGGTAAAAT-AGTAATTTTATAAATCGA-GGGTAAAA
* * * *** * *
44915011 TAGTAATTTTACAAA-CTAGGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAA
1 CAGTAATTTTATAAATCGA-GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAA
* * * * * * *
44915065 CGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTATAAATCTAGGGTAGAA
1 CAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAA
* * *
44915119 C-GATAATTCTGTAAATCGGGGGTA
1 CAG-TAATTTTATAAATCGAGGGTA
44915143 CTTTGGTAAT
Statistics
Matches: 184, Mismatches: 47, Indels: 21
0.73 0.19 0.08
Matches are distributed among these distances:
53 13 0.07
54 106 0.58
55 43 0.23
56 21 0.11
57 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (54 bp):
CAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAA
Found at i:44914999 original size:55 final size:54
Alignment explanation
Indices: 44914902--44915061 Score: 153
Period size: 55 Copynumber: 2.9 Consensus size: 54
44914892 GGGGTAAAAC
*** *
44914902 AGTAATTTTGTA-AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTT
1 AGTAATTTT-TACAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTACTTT
* * * *
44914956 GGTAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCAAGGGGTATTTT
1 AGTAATTTTTACAA-TCGAGGGTATTTCAGTAATTTTATAAATCGA-GGGTACTTT
* * * * *
44915012 AGTAA-TTTTACAAACTAGGGGTATTTTAGTAATTTTGTAAATTGAGGGTA
1 AGTAATTTTTACAATCGA-GGGTATTTCAGTAATTTTATAAATCGAGGGTA
44915062 AAACGGTAAT
Statistics
Matches: 86, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
53 2 0.02
54 17 0.20
55 55 0.64
56 12 0.14
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (54 bp):
AGTAATTTTTACAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTACTTT
Found at i:44916466 original size:45 final size:45
Alignment explanation
Indices: 44916416--44916528 Score: 154
Period size: 45 Copynumber: 2.5 Consensus size: 45
44916406 CCGTGGCATT
* ***
44916416 TTTCAACCATGGTCTTATTCATTCCCGACTAGATGCCATGGTGTC
1 TTTCAACCATGGTCTTATTCATTCCCAACTAGATGCCACAATGTC
* *
44916461 TTTCAACCATGGTCTTATTCATTCCCAATTTGATGCCACAATGTC
1 TTTCAACCATGGTCTTATTCATTCCCAACTAGATGCCACAATGTC
* *
44916506 TCTCTACCATGGTCTTATTCATT
1 TTTCAACCATGGTCTTATTCATT
44916529 TTACGTTGTG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (45 bp):
TTTCAACCATGGTCTTATTCATTCCCAACTAGATGCCACAATGTC
Found at i:44916562 original size:46 final size:44
Alignment explanation
Indices: 44916416--44916571 Score: 134
Period size: 45 Copynumber: 3.4 Consensus size: 44
44916406 CCGTGGCATT
* * * * *
44916416 TTTCAACCATGGTCTTATTCATTCCCGACTAGATGCCATGGTGTC
1 TTTC-ACCATGGTCTTATTCATTCACAATTTGATGCCATAGTGTC
* * *
44916461 TTTCAACCATGGTCTTATTCATTCCCAATTTGATGCCACAATGTC
1 TTTC-ACCATGGTCTTATTCATTCACAATTTGATGCCATAGTGTC
* * * *
44916506 TCTCTACCATGGTCTTATTCATTTTAC-GTTGTGTTGCCATAGTGTC
1 TTTC-ACCATGGTCTTATTCA-TTCACAATT-TGATGCCATAGTGTC
*
44916552 TTTCAGCCATGGACTTATTC
1 TTTCA-CCATGGTCTTATTC
44916572 GTCTGATTCA
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
45 61 0.66
46 31 0.34
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (44 bp):
TTTCACCATGGTCTTATTCATTCACAATTTGATGCCATAGTGTC
Found at i:44921281 original size:48 final size:47
Alignment explanation
Indices: 44921162--44921513 Score: 146
Period size: 49 Copynumber: 7.5 Consensus size: 47
44921152 TATGTGTGCT
* * * ** *
44921162 AGTGTAAGACATGCCTA-GACATGCATCGGCCAC-A-TTACGGGAACC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATA-TAGAGCC
** * * * * *
44921207 AGTGTAATTCATATCTGGGACTTGCATCAGCCTCAAGATATATGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATA-GAGCC
* * * *
44921255 AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGAT-GAGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATAGAGCC
* * * * *
44921301 AGTGTAAGACATGTCTGGGACATGCATTGGCCCCGAGATATACAAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATA-GAGCC
* * * * * * * * * *
44921349 ACTGTAAGACCTGTCTAGAACATGGCGTCAG-CT--TGTTGT-GTGTC
1 AGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCGAGATATAGAGCC
* * * * * * *
44921393 AGTGTAAGACCTATCTGGGACATGGCATCGACAC-CAATAGATGAGAGCC
1 AGTGTAAGACATGTCTAGGACAT-GCATCGGC-CTCGAGATAT-AGAGCC
* * * * *
44921442 AGTGTAAGACTTGTCTAGGACATGGCATTGGCCTCGAAATATGAAAGTC
1 AGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCGAGATAT-AGAGCC
* *
44921491 AGTGTAAGACCTGTCTGGGACAT
1 AGTGTAAGACATGTCTAGGACAT
44921514 AACATTGACT
Statistics
Matches: 222, Mismatches: 71, Indels: 24
0.70 0.22 0.08
Matches are distributed among these distances:
44 25 0.11
45 12 0.05
46 55 0.25
47 4 0.02
48 61 0.27
49 65 0.29
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATAGAGCC
Found at i:44921339 original size:46 final size:46
Alignment explanation
Indices: 44921250--44921465 Score: 130
Period size: 46 Copynumber: 4.6 Consensus size: 46
44921240 CAAGATATAT
**
44921250 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGATGA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCACCGAGATGA
* * * * *
44921296 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCCCGAGATATA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCACCGAGAT-GA
* * * * * * * * ** * *
44921343 CAAGCTACTGTAAGACCTGTCTAGAACATG--GCGTCAGCTTGTTGT
1 -GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCACCGAGATGA
* * * * * * *
44921388 GTGTCAGTGTAAGACCTATCTGGGACATGGCATCGACACCAATAGATGA
1 GAGCCAGTGTAAGACATGTCTAGGACAT-GCATCGGCACC--GAGATGA
*
44921437 GAGCCAGTGTAAGACTTGTCTAGGACATG
1 GAGCCAGTGTAAGACATGTCTAGGACATG
44921466 GCATTGGCCT
Statistics
Matches: 122, Mismatches: 41, Indels: 12
0.70 0.23 0.07
Matches are distributed among these distances:
44 20 0.16
45 1 0.01
46 43 0.35
47 6 0.05
48 25 0.20
49 27 0.22
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCACCGAGATGA
Found at i:44921448 original size:49 final size:49
Alignment explanation
Indices: 44921392--44921568 Score: 146
Period size: 49 Copynumber: 3.6 Consensus size: 49
44921382 TGTTGTGTGT
* *
44921392 CAGTGTAAGACCTATCTGGGACATGGCATCGACAC-C-AATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGAA-AGATGAAAGC
* * * * * *
44921441 CAGTGTAAGACTTGTCTAGGACATGGCATTGGCCTCGAAATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGAAAGATGAAAGC
** * * * * **
44921490 CAGTGTAAGACCTGTCTGGGACATAACATTGACTTTG-ATG-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGAAAGATGAAAGC
*
44921537 TAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACC-TGTCTGGGACATGGCATCG
44921569 GCATCTTATC
Statistics
Matches: 101, Mismatches: 24, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
47 15 0.15
48 18 0.18
49 66 0.65
50 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGAAAGATGAAAGC
Found at i:44927022 original size:16 final size:18
Alignment explanation
Indices: 44926991--44927023 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
44926981 CCCTTATGTG
44926991 ATGTATGGACCTATATTC
1 ATGTATGGACCTATATTC
44927009 ATGTAT-GA-CTATATT
1 ATGTATGGACCTATATT
44927024 ATAGCATGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (18 bp):
ATGTATGGACCTATATTC
Found at i:44941831 original size:124 final size:124
Alignment explanation
Indices: 44941609--44941833 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
44941599 GAATTATGTG
* * * * * * *
44941609 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
44941674 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
44941733 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
44941798 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
44941834 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:44941955 original size:40 final size:40
Alignment explanation
Indices: 44941828--44941957 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
44941818 TTGCTGGAAA
* * *
44941828 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
44941868 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
44941908 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
44941948 TTATATCCGG
1 TTATATCCGG
44941958 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:44950267 original size:40 final size:40
Alignment explanation
Indices: 44950212--44950348 Score: 206
Period size: 40 Copynumber: 3.5 Consensus size: 40
44950202 CGGATGATAA
*
44950212 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
44950252 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGCTACAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
44950292 CCGGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
44950332 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
44950349 ATACTTGGGT
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 75 0.85
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:44955866 original size:22 final size:22
Alignment explanation
Indices: 44955838--44955912 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
44955828 AATCAACATA
44955838 GCACAGAGCTATATTTAGGTTG
1 GCACAGAGCTATATTTAGGTTG
* * * *** *
44955860 GCACAGAGCCATAATCAACATA
1 GCACAGAGCTATATTTAGGTTG
44955882 GCACAGAGCTATATTTAGGTTG
1 GCACAGAGCTATATTTAGGTTG
44955904 GCACAGAGC
1 GCACAGAGC
44955913 CATAATCAGA
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (22 bp):
GCACAGAGCTATATTTAGGTTG
Found at i:44955872 original size:44 final size:44
Alignment explanation
Indices: 44955822--44955920 Score: 198
Period size: 44 Copynumber: 2.2 Consensus size: 44
44955812 TTTTGCAAAA
44955822 AGCCATAATCAACATAGCACAGAGCTATATTTAGGTTGGCACAG
1 AGCCATAATCAACATAGCACAGAGCTATATTTAGGTTGGCACAG
44955866 AGCCATAATCAACATAGCACAGAGCTATATTTAGGTTGGCACAG
1 AGCCATAATCAACATAGCACAGAGCTATATTTAGGTTGGCACAG
44955910 AGCCATAATCA
1 AGCCATAATCA
44955921 GATTAAGCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (44 bp):
AGCCATAATCAACATAGCACAGAGCTATATTTAGGTTGGCACAG
Found at i:44956291 original size:27 final size:26
Alignment explanation
Indices: 44956271--44956431 Score: 142
Period size: 27 Copynumber: 6.1 Consensus size: 26
44956261 ATTTTACCCT
*
44956271 ACAGGGGTATTTCGGTAATTTTACACT
1 ACAGGGGTATTTCGGTAATTTTACA-A
* * *
44956298 ACAAGGGTATCTAGGTAATTTTACAA
1 ACAGGGGTATTTCGGTAATTTTACAA
** * *
44956324 ATTGGGGTATGTCGATAATTTTACAA
1 ACAGGGGTATTTCGGTAATTTTACAA
* *
44956350 ATCGGGGGTATTTCGGTAATTTTATAA
1 A-CAGGGGTATTTCGGTAATTTTACAA
*** * **
44956377 TTTGAGGTATTTTAGTAATTTTACAA
1 ACAGGGGTATTTCGGTAATTTTACAA
*
44956403 ACTAAGGGTATTTCGGTAATTTTACAA
1 AC-AGGGGTATTTCGGTAATTTTACAA
44956430 AC
1 AC
44956432 CGTGGTCTTC
Statistics
Matches: 103, Mismatches: 29, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
26 40 0.39
27 63 0.61
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (26 bp):
ACAGGGGTATTTCGGTAATTTTACAA
Found at i:44956359 original size:53 final size:53
Alignment explanation
Indices: 44956276--44956430 Score: 156
Period size: 53 Copynumber: 2.9 Consensus size: 53
44956266 ACCCTACAGG
* * * *
44956276 GGTATTTCG-GTAATTTTACACTAC-AAGGGTATCTAGGTAATTTTACAAATTGG
1 GGTA-TTCGAGTAATTTTACA-AACTAAGGGTATTTCGGTAATTTTACAAATTGA
** * *
44956329 GGTATGTCGA-TAATTTTACAAA-TCGGGGGTATTTCGGTAATTTTATAATTTGA
1 GGTAT-TCGAGTAATTTTACAAACT-AAGGGTATTTCGGTAATTTTACAAATTGA
**
44956382 GGTATTTTAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAA
1 GGTATTCGAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAA
44956431 CCGTGGTCTT
Statistics
Matches: 82, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
52 4 0.05
53 77 0.94
54 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
GGTATTCGAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTACAAATTGA
Found at i:44959479 original size:90 final size:90
Alignment explanation
Indices: 44959323--44959489 Score: 235
Period size: 90 Copynumber: 1.9 Consensus size: 90
44959313 CAAATAGGGT
* * * * *
44959323 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCACACATTGATGCCATATCTCAGATATG
1 GCCAAAGCCATGTACCAGACATGATCTTACATGGGACCACACATCGATGCCATATCCCAGACATG
44959388 GTCTTATACGAAGTCTGGAATCAGC
66 GTCTTATACGAAGTCTGGAATCAGC
* * * * * *
44959413 GCCAACGCCATGTACCAGACATGATCTTATATGGGACCTCATATCGATGCCATGTCCCGGACATG
1 GCCAAAGCCATGTACCAGACATGATCTTACATGGGACCACACATCGATGCCATATCCCAGACATG
44959478 GTCTTATACGAA
66 GTCTTATACGAA
44959490 ATCATTTATT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
90 66 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (90 bp):
GCCAAAGCCATGTACCAGACATGATCTTACATGGGACCACACATCGATGCCATATCCCAGACATG
GTCTTATACGAAGTCTGGAATCAGC
Found at i:44974489 original size:21 final size:21
Alignment explanation
Indices: 44974476--44974524 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
44974466 AAACATCTAA
*
44974476 TAATATAAAGAAAATTATAAT
1 TAATATAAAGAAAAATATAAT
*
44974497 TAATATAAAGAAAATTATAAT
1 TAATATAAAGAAAAATATAAT
44974518 TAATATA
1 TAATATA
44974525 TATTCTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
TAATATAAAGAAAAATATAAT
Found at i:44977307 original size:40 final size:40
Alignment explanation
Indices: 44977142--44977310 Score: 202
Period size: 40 Copynumber: 4.2 Consensus size: 40
44977132 TCGAATGATG
* * *
44977142 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
44977182 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44977222 TCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44977262 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
44977303 -CCGGGCTA
1 TCCGGGCTA
44977311 TATTTGAACG
Statistics
Matches: 115, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 104 0.90
41 10 0.09
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44983321 original size:166 final size:168
Alignment explanation
Indices: 44983038--44983381 Score: 602
Period size: 166 Copynumber: 2.0 Consensus size: 168
44983028 ATGTAAAAAT
44983038 ATGTTTATCTCTTTGTATATGGCCATGAAAATTGGCTTAACTTAAGTAGGCTATGACCTACGATT
1 ATGTTTATCTCTTTGTATATGGCCATGAAAA-----TT-A-TTAAGTAGGCTATGACCTACGATT
44983103 TTTATGCATGTTTGTGTTTTTATATGATGGGTCGCTACAATTGGCAATGAGTTCAAAAACGAGCC
59 TTTATGCATGTTTGTGTTTTTATATGATGGGTCGCTACAATTGGCAATGAGTTCAAAAACGAGCC
44983168 AAATATCGAATGCGCTACAATAACATAAGAACCCATAAACACTAG
124 AAATATCGAATGCGCTACAATAACATAAGAACCCATAAACACTAG
*
44983213 ATGTTTATCTCTTTGTATATGGCCATGAAAA-T-TTAAGTAGGCTATGACCTACGATTTTTATGG
1 ATGTTTATCTCTTTGTATATGGCCATGAAAATTATTAAGTAGGCTATGACCTACGATTTTTATGC
44983276 ATGTTTGTGTTTTTATATGATGGGTCGCTACAATTGGCAATGAGTTCAAAAACGAGCCAAATATC
66 ATGTTTGTGTTTTTATATGATGGGTCGCTACAATTGGCAATGAGTTCAAAAACGAGCCAAATATC
44983341 GAATGCGCTACAATAACATAAGAACCCATAAACACTAG
131 GAATGCGCTACAATAACATAAGAACCCATAAACACTAG
44983379 ATG
1 ATG
44983382 GGAAATAACT
Statistics
Matches: 168, Mismatches: 1, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
166 136 0.81
169 1 0.01
175 31 0.18
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (168 bp):
ATGTTTATCTCTTTGTATATGGCCATGAAAATTATTAAGTAGGCTATGACCTACGATTTTTATGC
ATGTTTGTGTTTTTATATGATGGGTCGCTACAATTGGCAATGAGTTCAAAAACGAGCCAAATATC
GAATGCGCTACAATAACATAAGAACCCATAAACACTAG
Found at i:44993752 original size:7 final size:7
Alignment explanation
Indices: 44993742--44993766 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44993732 ATTCATATAA
44993742 ATGAAAT
1 ATGAAAT
44993749 ATGAAAT
1 ATGAAAT
44993756 ATGAAAT
1 ATGAAAT
44993763 ATGA
1 ATGA
44993767 TAGTTGAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (7 bp):
ATGAAAT
Found at i:44994386 original size:17 final size:18
Alignment explanation
Indices: 44994366--44994404 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
44994356 TATTTTGTAA
* *
44994366 TTTTATAAAATT-TTAAT
1 TTTTAAAAAATTAATAAT
44994383 TTTTAAAAAATTAATAAT
1 TTTTAAAAAATTAATAAT
44994401 TTTT
1 TTTT
44994405 TTGAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAAAAAATTAATAAT
Found at i:44994423 original size:24 final size:26
Alignment explanation
Indices: 44994396--44994476 Score: 98
Period size: 25 Copynumber: 3.2 Consensus size: 26
44994386 TAAAAAATTA
44994396 ATAATTTTTT-TGAA-TTAT-TTTTAT
1 ATAATTTTTTAT-AATTTATATTTTAT
*
44994420 ATAATTTTTTATAATTTTTATTTTAT
1 ATAATTTTTTATAATTTATATTTTAT
* *
44994446 ATAAATTTTTAT-ATTTTTATTTTAT
1 ATAATTTTTTATAATTTATATTTTAT
44994471 ATAATT
1 ATAATT
44994477 GGCATGTTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
24 12 0.24
25 22 0.43
26 17 0.33
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (26 bp):
ATAATTTTTTATAATTTATATTTTAT
Found at i:44994443 original size:26 final size:25
Alignment explanation
Indices: 44994414--44994476 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
44994404 TTTGAATTAT
44994414 TTTTATATAATTTTTTATAATTTTTA
1 TTTTATATAATTTTTTAT-ATTTTTA
*
44994440 TTTTATATAAATTTTTATATTTTTA
1 TTTTATATAATTTTTTATATTTTTA
44994465 TTTTATATAATT
1 TTTTATATAATT
44994477 GGCATGTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 18 0.51
26 17 0.49
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTATATAATTTTTTATATTTTTA
Found at i:44994448 original size:16 final size:17
Alignment explanation
Indices: 44994423--44994457 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44994413 TTTTTATATA
*
44994423 ATTTTTTAT-AATTTTT
1 ATTTTATATAAATTTTT
44994439 ATTTTATATAAATTTTT
1 ATTTTATATAAATTTTT
44994456 AT
1 AT
44994458 ATTTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTATATAAATTTTT
Found at i:44994528 original size:26 final size:28
Alignment explanation
Indices: 44994497--44994572 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 28
44994487 AAAAATTGAG
44994497 TTTATAT-TTTTTTATAATTTTTTA-AA
1 TTTATATATTTTTTATAATTTTTTAGAA
* * *
44994523 TTTATATATATTTT-GAA-TTTTTAGAT
1 TTTATATATTTTTTATAATTTTTTAGAA
*
44994549 TTTATATATTATTTTATACTTTTT
1 TTTATATATT-TTTTATAATTTTT
44994573 ATATTTTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
25 6 0.15
26 19 0.49
27 9 0.23
28 1 0.03
29 4 0.10
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (28 bp):
TTTATATATTTTTTATAATTTTTTAGAA
Found at i:44994556 original size:28 final size:28
Alignment explanation
Indices: 44994499--44994582 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 28
44994489 AAATTGAGTT
* * *
44994499 TATATTTTTTTATAATTTTTTA-AATTTA
1 TATATTATTTTAT-ACTTTTTAGATTTTA
44994527 TATA-TATTTTGA-A-TTTTTAGATTTTA
1 TATATTATTTT-ATACTTTTTAGATTTTA
*
44994553 TATATTATTTTATACTTTTTATATTTTA
1 TATATTATTTTATACTTTTTAGATTTTA
44994581 TA
1 TA
44994583 ATTTATATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
25 6 0.12
26 11 0.23
27 12 0.25
28 19 0.40
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.65
Consensus pattern (28 bp):
TATATTATTTTATACTTTTTAGATTTTA
Found at i:44994574 original size:9 final size:8
Alignment explanation
Indices: 44994505--44994595 Score: 51
Period size: 9 Copynumber: 10.5 Consensus size: 8
44994495 AGTTTATATT
44994505 TTTTTATAA
1 TTTTTAT-A
*
44994514 TTTTTTAAA
1 -TTTTTATA
44994523 TTTATATATA
1 TTT-T-TATA
*
44994533 TTTTGA-A
1 TTTTTATA
*
44994540 TTTTTAGA
1 TTTTTATA
44994548 TTTTATATA
1 TTTT-TATA
44994557 TTATTTTATA
1 -T-TTTTATA
44994567 CTTTTTATA
1 -TTTTTATA
44994576 -TTTTATAA
1 TTTTTAT-A
*
44994584 TTTATATA
1 TTTTTATA
44994592 TTTT
1 TTTT
44994596 AAAATAATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
7 12 0.18
8 14 0.22
9 18 0.28
10 18 0.28
11 3 0.05
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (8 bp):
TTTTTATA
Found at i:44994579 original size:16 final size:16
Alignment explanation
Indices: 44994507--44994596 Score: 66
Period size: 16 Copynumber: 5.8 Consensus size: 16
44994497 TTTATATTTT
*
44994507 TTTATA-ATTTTTTAAA
1 TTTATATATTTTAT-AA
44994523 TTTATATATATTT-TGAA
1 TTTATATAT-TTTAT-AA
* *
44994540 TTTTTAGATTTTAT-A
1 TTTATATATTTTATAA
*
44994555 --TAT-TATTTTATAC
1 TTTATATATTTTATAA
*
44994568 TTTTTATATTTTATAA
1 TTTATATATTTTATAA
44994584 TTTATATATTTTA
1 TTTATATATTTTA
44994597 AAATAATATT
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
12 7 0.12
13 2 0.03
15 3 0.05
16 30 0.52
17 13 0.22
18 3 0.05
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTATATATTTTATAA
Found at i:44994582 original size:26 final size:25
Alignment explanation
Indices: 44994497--44994595 Score: 71
Period size: 26 Copynumber: 3.8 Consensus size: 25
44994487 AAAAATTGAG
* *
44994497 TTTATATTTTTTTATAATTTTT-TAAA
1 TTTATATTATTTTAT-ATTTTTAT-AT
*
44994523 TTTATATATATTTTGA-ATTTTTAGATT
1 TTTATAT-TATTTT-ATATTTTTATA-T
44994550 TTATATATTATTTTATACTTTTTATAT
1 TT-TATATTATTTTATA-TTTTTATAT
44994577 TTTATA--ATTTATATATTTT
1 TTTATATTATTT-TATATTTT
44994596 AAAATAATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
24 8 0.13
25 4 0.07
26 19 0.31
27 17 0.28
28 13 0.21
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTATATTATTTTATATTTTTATAT
Found at i:44994596 original size:9 final size:9
Alignment explanation
Indices: 44994497--44994596 Score: 61
Period size: 10 Copynumber: 11.4 Consensus size: 9
44994487 AAAAATTGAG
44994497 TTTATAT-T
1 TTTATATAT
*
44994505 TTTTTATAAT
1 TTTATAT-AT
* *
44994515 TTTTTAAAT
1 TTTATATAT
44994524 TTATATATAT
1 TT-TATATAT
*
44994534 TTT-GA-AT
1 TTTATATAT
*
44994541 TTT-TAGAT
1 TTTATATAT
44994549 TTTATATAT
1 TTTATATAT
*
44994558 TATTTTATACT
1 T-TTATATA-T
44994569 TTT-TATAT
1 TTTATATAT
44994577 TTTATA-A-
1 TTTATATAT
44994584 TTTATATAT
1 TTTATATAT
44994593 TTTA
1 TTTA
44994597 AAATAATATT
Statistics
Matches: 74, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
7 12 0.16
8 18 0.24
9 20 0.27
10 22 0.30
11 2 0.03
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTATATAT
Found at i:44997426 original size:49 final size:49
Alignment explanation
Indices: 44997324--44997448 Score: 137
Period size: 49 Copynumber: 2.6 Consensus size: 49
44997314 CGTGTGTTAG
* *
44997324 TGTAAGGCCTGTCTGGGACATGGCATCGACACAGATAAGTGAAAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAAAGCCAA
* * * * *
44997373 TGTAAGACCTGTCTGGGACATAGCATCGGCCTCAAGAT-A-TGCAAGCTAA
1 TGTAAGACCTGTCTGGGACATGGCATC-GACAC-AGATAAGTGAAAGCCAA
* *
44997422 TGTAAAACCTATCTGGGACATGGCATC
1 TGTAAGACCTGTCTGGGACATGGCATC
44997449 TGTAACATCC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 56 0.88
50 4 0.06
51 4 0.06
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAAAGCCAA
Found at i:44998848 original size:50 final size:50
Alignment explanation
Indices: 44998667--44998948 Score: 302
Period size: 50 Copynumber: 5.7 Consensus size: 50
44998657 ATCTATTGTG
* * * **
44998667 AGGTCACGTGTTTAGTACTAAGTGCAGGCTACTACATGTACCGGATTATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT
* * * * **
44998717 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCT-TACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACG-TGTACCAGAT-GGTT
* * * *
44998767 CGATCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT
* * *
44998817 AGGTCATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT
* **
44998867 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACC-GAATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATGGTT
* *
44998917 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACT
44998949 GTGCGTACCA
Statistics
Matches: 197, Mismatches: 30, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
49 68 0.35
50 93 0.47
51 36 0.18
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT
Found at i:44998995 original size:100 final size:100
Alignment explanation
Indices: 44998668--44998969 Score: 356
Period size: 100 Copynumber: 3.0 Consensus size: 100
44998658 TCTATTGTGA
** * *
44998668 GGTCACGTGTTTAGTACTAAGTGCAGGCTACTACATGTACCGGATTATTGGTCGCATGTGTAGTA
1 GGTCACGTGTGCAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGTCGCATGTGTAGTA
* * * *
44998733 CTAAGTGCAGGCTACTATGCTTACCCGATAACTTC
66 CTAAGTGCAGGCTACTATGCGTACCAGATAGCTTT
* * * ** ***
44998768 GATCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTTAGGTCATGTGTGTAG
1 GGTCACGTGTGCAGTACTAAGTGCAGGCTACTACATGTACCGA-ATAATT-GGTCGCATGTGTAG
* * * * * *
44998832 TACTAAGTGCAAGCTACTACGTGTATCAGAT-GGTTA
64 TACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTT
*
44998868 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGTCGCATGTGTAGTA
1 GGTCACGTGTGCAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGTCGCATGTGTAGTA
*
44998933 CTAAGTGCAGGCTACTGTGCGTACCAGATAGCTTT
66 CTAAGTGCAGGCTACTATGCGTACCAGATAGCTTT
44998968 GG
1 GG
44998970 CTACAAGTCT
Statistics
Matches: 162, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
99 37 0.23
100 88 0.54
101 37 0.23
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (100 bp):
GGTCACGTGTGCAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTATGCGTACCAGATAGCTTT
Found at i:45000301 original size:49 final size:48
Alignment explanation
Indices: 45000245--45000492 Score: 174
Period size: 49 Copynumber: 5.1 Consensus size: 48
45000235 GAGGTGTGTT
* *
45000245 AGTGTAAGACTTGTC-AGGGACATGGCATCGACACAGATAAGTGAGAGCC
1 AGTGTAAGACATGTCTA-GGACATGGCATCGACTCAGAT-AGTGAGAGCC
* *
45000294 AGTGTAAGACATGTCTAGGACATGGCATCAGCCTC-GAT-GT-ATGTAAGTC
1 AGTGTAAGACATGTCTAGGACATGGCATC-GACTCAGATAGTGA-G--AGCC
* * * * *
45000343 AGTGTAAGACCTGTTTGGGACATGGCATCGACTTAGAT-GTGAGAGCT
1 AGTGTAAGACATGTCTAGGACATGGCATCGACTCAGATAGTGAGAGCC
* *
45000390 AGTGTAAAACATGTCTAGGACATGGCATCAACCTCA-AT-GT-ATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGGCATCGA-CTCAGATAGTGA-G--AGCC
* * * * * *
45000439 AGTGTAAGACCTGT-TCGGGACATGGCATTGACTTAGA-CGTGAAAGCC
1 AGTGTAAGACATGTCT-AGGACATGGCATCGACTCAGATAGTGAGAGCC
45000486 AGTGTAA
1 AGTGTAA
45000493 AACCATGTTT
Statistics
Matches: 159, Mismatches: 25, Indels: 32
0.74 0.12 0.15
Matches are distributed among these distances:
46 2 0.01
47 47 0.30
48 10 0.06
49 94 0.59
50 6 0.04
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTAGGACATGGCATCGACTCAGATAGTGAGAGCC
Found at i:45000411 original size:96 final size:96
Alignment explanation
Indices: 45000245--45000500 Score: 359
Period size: 96 Copynumber: 2.6 Consensus size: 96
45000235 GAGGTGTGTT
* * ** *
45000245 AGTGTAAGACTTGTCAGGGACATGGCATCGACACAGATAAGTGAGAGCCAGTGTAAGACATGTCT
1 AGTGTAAGACCTGTTAGGGACATGGCATCGACTTAGAT--GTGAGAGCCAGTGTAAAACATGTCT
* * *
45000310 AGGACATGGCATCAGCCTCGATGTATGTAAGTC
64 AGGACATGGCATCAACCTCAATGTATGTAAGCC
* *
45000343 AGTGTAAGACCTGTTTGGGACATGGCATCGACTTAGATGTGAGAGCTAGTGTAAAACATGTCTAG
1 AGTGTAAGACCTGTTAGGGACATGGCATCGACTTAGATGTGAGAGCCAGTGTAAAACATGTCTAG
45000408 GACATGGCATCAACCTCAATGTATGTAAGCC
66 GACATGGCATCAACCTCAATGTATGTAAGCC
* * * *
45000439 AGTGTAAGACCTGTTCGGGACATGGCATTGACTTAGACGTGAAAGCCAGTGTAAAACCATGT
1 AGTGTAAGACCTGTTAGGGACATGGCATCGACTTAGATGTGAGAGCCAGTGTAAAA-CATGT
45000501 TTGGAACATG
Statistics
Matches: 142, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
96 104 0.73
97 5 0.04
98 33 0.23
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCTGTTAGGGACATGGCATCGACTTAGATGTGAGAGCCAGTGTAAAACATGTCTAG
GACATGGCATCAACCTCAATGTATGTAAGCC
Found at i:45000755 original size:62 final size:62
Alignment explanation
Indices: 45000678--45000806 Score: 231
Period size: 62 Copynumber: 2.1 Consensus size: 62
45000668 ATTCTTGTTG
* *
45000678 TATGGATAGCGAGGAATGAACATGAGTAAGATTTGTTATGAACATTTACTCTTTGTGCGAGT
1 TATGAATAGCAAGGAATGAACATGAGTAAGATTTGTTATGAACATTTACTCTTTGTGCGAGT
*
45000740 TATGAATAGCAAGGAATGAACATGAGTAAGATTTTTTATGAACATTTACTCTTTGTGCGAGT
1 TATGAATAGCAAGGAATGAACATGAGTAAGATTTGTTATGAACATTTACTCTTTGTGCGAGT
45000802 TATGA
1 TATGA
45000807 TATATTGGGA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (62 bp):
TATGAATAGCAAGGAATGAACATGAGTAAGATTTGTTATGAACATTTACTCTTTGTGCGAGT
Found at i:45001306 original size:37 final size:37
Alignment explanation
Indices: 45001234--45001306 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
45001224 TGAATACATG
* ** *
45001234 TTGTGGTTGATTTAGTCTTATATTGTTGTGTGAATTA
1 TTGTGGTTGATTTAGCCTTATATTACTGTGAGAATTA
45001271 TTGTGGTTGATTTAGCCTTATATTACTGTGAGAATT
1 TTGTGGTTGATTTAGCCTTATATTACTGTGAGAATT
45001307 GGAGATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.21, C:0.05, G:0.23, T:0.51
Consensus pattern (37 bp):
TTGTGGTTGATTTAGCCTTATATTACTGTGAGAATTA
Found at i:45006715 original size:47 final size:44
Alignment explanation
Indices: 45006604--45006780 Score: 142
Period size: 47 Copynumber: 3.9 Consensus size: 44
45006594 GACATGGCGC
* * * ** *
45006604 GTGCTGATGCATGTCCCAGACATGTCTTACACTAGCAGAACTCT
1 GTGCTGATGCATGTCCCAAACACGTCTTACACTGGCTCATCTCT
* ** *
45006648 -TACCCAATGCGTGTCCCAAACACGTCTTACACTGGCT-ATCTCT
1 GT-GCTGATGCATGTCCCAAACACGTCTTACACTGGCTCATCTCT
*
45006691 GTCAAGGCTGATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCT
1 GT----GCTGATGCATGTCCCAAACACGTCTTACACTGG--CTCATCTCT
* *
45006741 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 GTGCTGATG-CATGTCCCAAACA-CGTCTTACACTGGCTC
45006781 TCATAATGTA
Statistics
Matches: 106, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 6 0.06
44 28 0.26
46 10 0.09
47 40 0.38
48 12 0.11
49 2 0.02
50 8 0.08
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (44 bp):
GTGCTGATGCATGTCCCAAACACGTCTTACACTGGCTCATCTCT
Found at i:45006784 original size:48 final size:46
Alignment explanation
Indices: 45006697--45006818 Score: 156
Period size: 47 Copynumber: 2.6 Consensus size: 46
45006687 CTCTGTCAAG
* **
45006697 GCTGATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCTGT-
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCAT-AATGTA
*
45006743 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTA
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATGTA
* *
45006791 GCCGAAGCATGTCCCAGACATGTCTTAC
1 GCTGATGCATGTCCCAGACATGTCTTAC
45006819 TGTAACACCC
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
46 14 0.21
47 30 0.45
48 23 0.34
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTA
Found at i:45006802 original size:47 final size:46
Alignment explanation
Indices: 45006659--45006818 Score: 146
Period size: 47 Copynumber: 3.4 Consensus size: 46
45006649 ACCCAATGCG
* * * * *
45006659 TGTCCCAAACACGTCTTACACTGGCTATCTCTGTCAA-G-GCTGATGCA
1 TGTCCCAGACATGTCTTACACTGGC-A-CTC-ATCAATGTGCCGAAGCA
* ** * *
45006706 TGTCCCAAACATGTCTTACACTGGCACTCATCTCTGTGCTGATGCCA
1 TGTCCCAGACATGTCTTACACTGGCACTCATCAATGTGCCGAAG-CA
*
45006753 TGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATGTAGCCGAAGCA
1 TGTCCCAGACAT-GTCTTACACTGGCACTCATCAATGT-GCCGAAGCA
45006800 TGTCCCAGACATGTCTTAC
1 TGTCCCAGACATGTCTTAC
45006819 TGTAACACCC
Statistics
Matches: 98, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
44 2 0.02
45 4 0.04
46 15 0.15
47 54 0.55
48 23 0.23
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTGGCACTCATCAATGTGCCGAAGCA
Found at i:45008261 original size:40 final size:39
Alignment explanation
Indices: 45008217--45008370 Score: 191
Period size: 39 Copynumber: 3.9 Consensus size: 39
45008207 GTTCAAAACA
* * ** * *
45008217 CCTTCGGGACGTAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
45008257 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
45008297 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
45008336 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
45008371 TTCATTCACA
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 60 0.60
40 40 0.40
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:45008328 original size:39 final size:39
Alignment explanation
Indices: 45008247--45008370 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
45008237 TATGGTAACC
* *
45008247 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
45008287 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
45008326 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
45008365 CGCACA
1 CGCACA
45008371 TTCATTCACA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 60 0.78
40 17 0.22
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:45010345 original size:30 final size:30
Alignment explanation
Indices: 45010309--45010367 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
45010299 TAAATTTACA
* *
45010309 ACTTTGGTAAAATGACCATTTTGCCCCTAG
1 ACTTTGGCAAAATGACCATTTTACCCCTAG
45010339 ACTTTGGCAAAATGACCATTTTACCCCTA
1 ACTTTGGCAAAATGACCATTTTACCCCTA
45010368 TGCCCGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (30 bp):
ACTTTGGCAAAATGACCATTTTACCCCTAG
Found at i:45011396 original size:44 final size:44
Alignment explanation
Indices: 45011330--45011415 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
45011320 TACATGTATT
* * *
45011330 GCATCCATCATGAACTCAGACCAATTCAACGAGTTCGGATGCTG
1 GCATCCATAATGAACTCAGACCAATTCAACGAGCTCAGATGCTG
*
45011374 GCATCCATAATGAACTCGGACCAATTCAACGAGCTCAGATGC
1 GCATCCATAATGAACTCAGACCAATTCAACGAGCTCAGATGC
45011416 CTCATATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (44 bp):
GCATCCATAATGAACTCAGACCAATTCAACGAGCTCAGATGCTG
Found at i:45012169 original size:20 final size:20
Alignment explanation
Indices: 45012144--45012182 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
45012134 ATAATTTCAA
45012144 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
45012164 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
45012183 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:45012944 original size:15 final size:15
Alignment explanation
Indices: 45012924--45012955 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45012914 CATTTCAGTA
*
45012924 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
45012939 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
45012954 TT
1 TT
45012956 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:45014150 original size:24 final size:24
Alignment explanation
Indices: 45014123--45014176 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
45014113 AATCAAGTAA
45014123 AATTAAATTAATCAAATTAATTAG
1 AATTAAATTAATCAAATTAATTAG
45014147 AATTAAATTAATCAAATTAATTAG
1 AATTAAATTAATCAAATTAATTAG
45014171 AATTAA
1 AATTAA
45014177 TATGACATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (24 bp):
AATTAAATTAATCAAATTAATTAG
Found at i:45014731 original size:63 final size:59
Alignment explanation
Indices: 45014658--45014775 Score: 164
Period size: 63 Copynumber: 1.9 Consensus size: 59
45014648 AGTGATTATA
* *
45014658 TTAATATTAAATTTAATATAATGTTTATCTTGTTAGATAAATATTATATTATTTTAATAAGAT
1 TTAATATTAAATTTAATATAATATTTATC---TT-GATAAATATTATATTAATTTAATAAGAT
* *
45014721 TTAATATTAAATTTAATCTAATATTTATCTTGATTAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATATAATATTTATCTTGATAAATATTATATTAATTTAATA
45014776 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 22 0.43
60 2 0.04
63 27 0.53
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.52
Consensus pattern (59 bp):
TTAATATTAAATTTAATATAATATTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:45017993 original size:2 final size:2
Alignment explanation
Indices: 45017986--45018013 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45017976 GCTCTTGCAC
45017986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45018014 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45018814 original size:40 final size:40
Alignment explanation
Indices: 45018720--45018864 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
45018710 TACTCGAATG
*
45018720 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
45018761 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
45018801 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
45018841 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
45018865 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:45026635 original size:40 final size:40
Alignment explanation
Indices: 45026541--45026685 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
45026531 TACTCGAATG
*
45026541 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* **
45026582 ACATCCGAACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
45026622 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
45026662 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
45026686 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Done.